Survival marker genes of colorectal cancer derived from consistent transcriptomic profiling

BMC Genomics

Table 1 Summary information about the series of colorectal cancer (CRC) samples that were collected to produce the integrated data set analyzed in this work

GEO dataset	Sample Source	Sample Description	Total samples in dataset	PubMed PMID	Authors and Year	Samples discarded	Samples processed
GSE14333	Royal Melbourne Hospital, Western Hospital and Peter MacCallum Cancer Center, AUSTRALIA. H Lee Moffitt Cancer Center, USA	primary colorectal cancers	290	19996206	Jorissen RN et al. (2009)	64	226
GSE17536	Moffitt Cancer Center, USA	colorectal cancer patients	177	19914252	Smith JJ et al. (2010)	0	177
GSE31595	Roskilde Hospital, DENMARK	patients with stage II and III colorectal cancer	37	–	Thorsteinsson M et al. (2011)	0	37
GSE33113	Academic Medical Center in Amsterdam, NETHERLANDS	primary tumor resections from stage II colorectal patients	90	22496204	Kemper K et al. (2012)	0	90
GSE38832	Vandervilt University Medical Center, USA	tumor samples collected from colorectal patients	122	25320007	Tripathi MK et al. (2014)	0	122
GSE39084	Toulouse Hospital, FRANCE	sporadic early onset primary colorectal carcinomas	70	25083765	Kirzin S et al. (2014)	1	69
GSE39582	Institut G. Roussy (Villejuif), Hosp. Saint Antoine (Paris), Hosp. G.Pompidou (Paris), Hosp. Hautepierre (Strasbourg), Hosp. Purpan (Toulouse), Institut P. Calmettes (Marseille), Centre Antoine Lacassagne (Nice), FRANCE	colorectal cancer samples	566	23700391	Marisa L et al. (2013)	14	552
Total number			1352				1273

All the CRC samples were tested for global gene expression profiling using high-density microarrays Human Genome U133 Plus 2.0 from Affymetrix (that measure the signal of 20,141 human genes). The total collection included 1352 samples, but only 1273 were finally used. A group of 79 samples were discarded because they did not have survival data or they presented anomalous data distributions with respect to the other samples of the same series

ISSN: 1471-2164